Cardelino: Integrating whole exomes and single-cell transcriptomes to reveal phenotypic impact of somatic variants
DOI10.5281/zenodo.1403510Zenodo1403510MaRDI QIDQ6704343FDOQ6704343
Dataset published at Zenodo repository.
Yuanhua Huang, Raghd Rostom, Davis J. McCarthy
Publication date: 27 August 2018
Copyright license: Creative Commons Attribution 4.0 International
This datasetconsists of the reference data files, metadata and processed results files for the paper Cardelino: Integrating whole exomes and single-cell transcriptomes to reveal phenotypic impact of somatic variants, whichinvestigates clonality in normal human dermal fibroblast cell populations in 32 cell lines from distinct donors, using bulk whole-exome sequencing and single-cell RNA-sequencing data. This dataset contains everything required to reproduce the results presented in the paper fromprocessed data and results of our data processing workflows. Our analyses can be reproduced using the source codeand instructions available at our project website. The entire analysis workflow from raw data to final results is also reproducible butis substantially more complicated and computationally intensive.It also requires large datasets to be obtained from other repositories. Specifically, single-cell RNA-seq data have been deposited in the ArrayExpress database at EMBL-EBI under accession number E-MTAB-7167. Whole-exome sequencing data is available through the HipSci portal (www.hipsci.org). Combined with the dataset in this repository and following the instructions on the project website, it is possible to run our entire analysis pipeline.
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